GeneStructureTools

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see GeneStructureTools.

Tools for spliced gene structure manipulation and analysis


Bioconductor version: 3.10

GeneStructureTools can be used to create in silico alternative splicing events, and analyse potential effects this has on functional gene products.

Author: Beth Signal

Maintainer: Beth Signal <b.signal at garvan.org.au>

Citation (from within R, enter citation("GeneStructureTools")):

Installation

To install this package, start R (version "3.6") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("GeneStructureTools")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("GeneStructureTools")
Introduction to GeneStructureTools HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews AlternativeSplicing, DifferentialSplicing, FunctionalPrediction, ImmunoOncology, RNASeq, Software, Transcriptomics
Version 1.6.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License BSD_3_clause + file LICENSE
Depends
Imports Biostrings, GenomicRanges, IRanges, data.table, plyr, stringdist, stringr, S4Vectors, BSgenome.Mmusculus.UCSC.mm10, stats, utils, Gviz, rtracklayer, methods
System Requirements
URL
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Suggests BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package GeneStructureTools_1.6.0.tar.gz
Windows Binary GeneStructureTools_1.6.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) GeneStructureTools_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneStructureTools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneStructureTools
Bioc Package Browser https://code.bioconductor.org/browse/GeneStructureTools/
Package Short Url https://bioconductor.org/packages/GeneStructureTools/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.10 Source Archive